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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM DMFold SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

BioLiP
>protein
NYDPFVRHSVTVKADRKTAFKTFLEGFPEWWPNNFRTTKVGAPLGVDKKGGRWYEIDEQGEEHTFGLIRKVDEPDTLVIG
WRLNGFGRIDPDNSSEFTVTFVADGQKKTRVDVEHTHFDRMGTKHAKRVRNGMDKGWPTILQSFQDKIDEEGAKK

The query sequence (length=155) is searched through a non-redundant set of database sequences protein_nr.fasta.gz clustered at 90% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length
Aligned
length
Identity
(normalized by query)
Identity
(normalized by hit)
Identity (normalized
by aligned length)
E-value Homologs
to hit
1 2gkd:A 155 155 1.0000 1.0000 1.0000 1.74e-113 2l65:A
2 5z36:A 154 123 0.2903 0.2922 0.3659 5.12e-15 5z4f:A
3 7adr:A 473 49 0.0839 0.0275 0.2653 2.2 7adr:D, 7ady:A, 7ady:D, 7aiz:A, 7aiz:D, 6fea:A, 6fea:D, 5n6y:A, 5n6y:D
4 8i01:A 594 37 0.0903 0.0236 0.3784 3.6 8beo:A, 8beo:B, 8beo:C, 8beo:E, 8beo:D, 8beo:F, 8i01:B, 8i01:C, 8i01:E, 8i01:D, 8i01:F, 8i05:A, 8i05:B, 8i05:C, 8i05:E, 8i05:D, 8i05:F, 8i07:A, 8i07:B, 8i07:C, 8i07:E, 8i07:D, 8i07:F, 8i08:A, 8i08:B, 8i08:C, 8i08:E, 8i08:D, 8i08:F, 2pan:A, 2pan:B, 2pan:C, 2pan:D, 2pan:E, 2pan:F
5 6z1p:AB 264 65 0.1032 0.0606 0.2462 5.0
6 5iku:A 240 50 0.1032 0.0667 0.3200 5.1 4hpk:A, 4hpk:B, 1nqd:A, 1nqd:B, 2o8o:A, 2o8o:B
7 2uvf:A 571 67 0.1097 0.0298 0.2537 6.8
8 6zxu:A 701 41 0.0968 0.0214 0.3659 7.0 4ras:A, 4ras:B, 4ras:C, 6zxu:B, 6zxu:C, 6zxx:A, 6zxx:B, 6zxx:C, 6zy0:A, 6zy0:B, 6zy0:C, 6zy1:A, 6zy1:B, 6zy1:C
9 7exf:B 719 37 0.0968 0.0209 0.4054 7.1 7exf:A, 7exg:B, 7exg:A, 7exh:B, 7exh:A, 7exj:A, 7exj:B, 7exq:A, 7exq:B, 7exr:A, 7exr:B
10 1ksk:A 234 88 0.1419 0.0940 0.2500 7.3 1ksl:A, 1ksv:A
11 6jv0:A 273 35 0.0839 0.0476 0.3714 7.7 6juz:A, 6jv1:A
12 6jg1:A 606 46 0.0968 0.0248 0.3261 9.5 1ex1:A, 1ieq:A, 1iev:A, 1iew:A, 1iex:A, 1j8v:A, 6jg2:A, 6jg6:A, 6jg7:A, 6jga:A, 6jgb:A, 6jgc:A, 6jgd:A, 6jge:A, 6jgg:A, 6jgk:A, 6jgl:A, 6jgn:A, 6jgo:A, 6jgp:A, 6jgq:A, 6jgr:A, 6jgs:A, 6jgt:A, 6k6v:A, 6kuf:A, 6l1j:A, 6lbb:A, 6lbv:A, 6lc5:A, 1lq2:A, 6md6:A, 6mi1:A, 3wlh:A, 3wlj:A, 3wlk:X, 3wll:A, 3wlo:A, 3wlp:A, 1x38:A, 1x39:A

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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